Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u16377.003

ChromosomeExonStartStopDirection
chr2H1752587162752586875+
chr2H2752588225752587999+
chr2H3752588451752588346+
chr2H4752588933752588832+
chr2H5752589073752589014+
chr2H6752589262752589184+
chr2H7752589517752589364+
chr2H8752589725752589602+
chr2H9752590240752590063+
chr2H10752590438752590410+
chr2H11752591094752590992+
chr2H12752591357752591262+
chr2H13752591736752591444+
chr2H14752592021752591959+
chr2H15752592164752592108+
chr2H16752592439752592278+
chr2H17752593033752592963+
chr2H18752593214752593121+
chr2H19752593626752593490+
chr2H20752593809752593729+
chr2H21752594122752594017+
chr2H22752595169752594437+


grey: non-coding, green: Barley Morex IBSC 2017 Transcript CDS, red: Barley RTD exons



Salmon TPM Values: sixteensamplesmorex

These TPM values were generated by using the RNA-seq data from a 16-tissue experiment in Morex (published here) were calculated using Salmon (version Salmon-0.8.2) using BaRTv1.0-QUASI as the reference transcript dataset. Click here for more information about the RNA-seq experiment and materials


SampleTreatmentRep 1Rep 2Rep 3
morexEMB000
morexETI0.00000000465490.09498910.0152092
morexLEA000
morexEPI000.149709
morexROO000
morexROO20.1466410.2148040
morexNOD000.0306314
morexRAC000
morexINF1000
morexINF2000
morexCAR5000
morexCAR15000
morexLEM00.000000001807190.479701
morexLOD000
morexPAL000
morexSEN0.0000000009845980.2007670.00570224



Homology to Model Species (BLASTX to E-value < 1e-30)

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os07g29220.1 +1 3e-163 492 229/312 (73%) protein|Cyclopropane-fatty-acyl-phospholipid synthase, putative, expressed
TAIR PP10 AT3G23510 @ ARAPORT
AT3G23510.1 @ TAIR		 +1 3e-132 423 197/309 (64%) Symbols: | Cyclopropane-fatty-acyl-phospholipid synthase | chr3:8428071-8433159 FORWARD LENGTH=867
BRACH PP3 Bradi5g02490.1.p +1 3e-155 485 227/324 (70%) pacid=32809829 transcript=Bradi5g02490.1 locus=Bradi5g02490 ID=Bradi5g02490.1.v3.1 annot-version=v3.1




Barley PseudoMolecules GBrowse

Click here to see more tracks within GBrowse -->



grey: non-coding, green: Barley Morex IBSC 2017 Transcript CDS, red: Barley RTD exons



CDS Sequence (3343 bp)

>BART1_0-u16377.003 3343 150831_barley_pseudomolecules
GTCCCGAATGCCTCTCCTACGAGGTGCTCCCCGGCGCAATACGTTGCCCATTGCAGCTCT
CTGCCTTCACCTGCTGCAGCGCCCTGCCGCTCGTCGTTTGATGCAGGCCCCGTCGGGCTC
GAAGAACATCAGGGAGCCTCGCCGTGAGCTCGTCGTCCCTATTGGGTAGGCACGCAAGGT
CAGGCAATCCAGGATTGATCGGCACCATAGCTCTCGCCCCTTTCCCCCATCTTCTCGACA
GTTCGTCCGTACCAGCTCATTGCACGGAAGGTGCTCGATGGAATGCTTGTAACATATCCG
CAAATGATGGAATGGTTAGAAGGGCTCGGGGTTGAGATGGAGAGGTCAGACATGTCTTTC
TCTGTGAGCACACAATCTAAAGGAGGCGGTGGAGGATGTGAGTGGGGAAATGGTAACGGT
ATATCGAGCCTCTTGGCGCAAAAAACCAACATACTGAAACCCAGTTTTTGGCACATGGTC
TGTGAGATACTCAAGTTCAAGAACAATGCCCTGACGTACCTGGAGGACCATGAACGTAAC
CCTGATCTGGATCGTAATGAGACACTGGGGCAGTTCATTCAGTCGCATGGATATTCCCTA
TCGTTTCAAGAGGCTTATCTTATTCCAGTCTGCACAGGCACGTGGTCATGTTCATCACAA
GATGTTTTGAGCCTGTCTGCTTTCTTGGTGCTGTCATTTTGCCGTAACCATGGCCTTCTT
CAGCTGTTTCGTCACTCCCAGTTGCCCACTGTCAAGCCTAGTTCGCAGTCCTATGTAAAC
AAGGTAAAAGGAGAATTGGAGAGCATTGGCTGTCGAATTAAAACCAGTTGTCGGGTCAAA
TCTGTTTCAAGTCTTGATGGAGCAGCTGGCTACAGAGTCTTGGAGAATGATGGTTCAGTG
GAAACATACGACAGTGTCATCTTTGGGGTCCATGCATCCAATGCTCTCAAATTATTAGGA
GCTGAAGCATCACATCACGAACGAAGAATTCTAGGTGCCTGTCAGTATGTCCAAAGAGAT
ATATACCTCCACTGCGATCAAAATTTGATGCCCCGAAAATCAGCAGCATGGAGTGCGTGG
AATTTCCTTGGGACAACTAGTAGGGGTTTTTCTATTACTTACTGGCTAAACCAAATTCAG
AAATTTGAATCGGGCAGGCCTTTCCTGGTGACACTCAATCCCCCTTGTGTTCCGGATCAT
GTACTACTTAAATGGAATACAAGCCTTCCTGTTCCGTCTGTGGCCGCGGCGAAGGCTTAT
CTTCAGCTTGATCAGATCCAGGGAAAGAGGGGAATATGGTTCTGTGGGGCATATCAAGGT
CATGGCTTCCATGAAGACGGATTAAAGATTGGTCGAAGAAGGAGGTAGTGTGTTCAGCTT
TGGTAAAGCTTGCGACAAATGCCGTGTAAAATCTGTCATCCAAGTTCATGACCCCTTGTT
CTATTGGAAGGTTGCAATAGAAGGAGGCATGGGCTTGGCAGAATCCTATATTGACGGTTG
TTTCTCTGTTCTTGACAAGAGAGAAGGCCTTCTAAATCTTATCCTGATTCTCATTGCTAA
CAGAGACGAGCGTAGGAACCGCCGCATTGCCAGAAAAGGGTTCTGAAACCTTCAATTGTC
CACTAGATTCCTATGAATTGTTTGATAAAAATGAAGTAGTACCTATGAGTATGCGTTTGT
GATTAATCCTGTACATGCTGTTTTTCGGTTTGCAGGTTTTGGTTGTCACCCTTCCATGTA
ATAGCTCAATTGGCATATGCTAAACACTTTTTGCGCCAGGCAACAAGGAAGAACACTGCA
ACACAAACTCGTCGAAACATCTCTGAGCACTATGATCTTAGTAACGACTTTTTTTCGCTT
TTTCTGGATAAATCGATGACTTACTCCTGTGCAGTTTTCAAGGAGAACGAAAGCTTAGAA
GCAGCCCAACAACGTAAACTTAGCCTTCTAATCAACAAGGCTAAAGTCAAGAGGGAGCAT
CATGTTCTTGATATCGGTAGCGGCTGGGGAAGTTTAGCAATAGAAACAGTTAAGCAAACT
GGCTGCAAATACACTGGAGTCACTTTATCGGCGGAGCAGCATAAATACGCAGAAAGAAAA
GTAAGAGAAGCTGGCTTAGAGGACCGCATAAATTTTCTGCTGTGCGACTACCGTAAAATA
CCACCTTTTAAGTATGACGCAATCATAAGCTGTGGTATGATTGAACATGTTGGCCATGAA
TACATGGACGAATTTTTTGCTTGCTGTGAGTCTTACTTGGCTGAAGATGGGATATTGGTC
CTCCAGTTCATCTCAGTTCCAGAGGAACGGTACGAGCAATACAGAAAAAGGCCAGACTTC
ATAAAAGAGTACATATTCCCTGGTGGTTGCCTTCCTTCTTTGGCCCGTATAATGTCTGCC
ATGACCGCGTCATCAAGGTTCTGCATAGAGCATGTCGAGAATATTGGGCCCAATTACTAC
ACAACTCTGATGCACTGGAGGGACAACTTCATGGCCAACAGAGACCAAGTTTTGGCCCTG
GGCTTTGATGAAAGGTTCCTCCGTATATGGGAGTACTACCTCATATTCTCTGCGGCTGGT
TTCAAGTCACGAGCAATTGGAGATTACCAGGTTGTTTTCTCTCGTCCAGGCAATCGTCGT
CTAGGCCAGCCTTGATGGCCGGAGACAACATATCCTTCTCCGTTCAGCGGCCGAATGGTT
ACTTGTCAGTACCGTACGAGATTTTAATAAGTCAGTCCTGGAATGATTCGCTCATGCCGG
AATCCTACTCAGGTGGTTTGGTGATCTATCTTGTTGTTTAACCATGCAATGGTTAGTTTT
TCGTGGGAGTGTCTTGTTATCCATCAATTAACTAGAATTTTGAGAATTGTATGTAAGGAA
CTGGTTTGTTTGCTTTAATATCTATGAGGAAGAGTTGATGTCCTTGCTTGTAGTTTCTCA
TGATCTGATCTATTCGGTGTTTGCCGTTTTCAATGCTTGCTTGCGAAGAGAATCAATATA
TGTTCCTGAGTATCATGTTTCACCAATGACTGAGGAGGACTTTTGCTAACAGAAAAGATG
AGATCTCTTTGGCTAGTTTTTGTTAAAGGGGATGGCAGCAGTAAATACCTTCGTCCTTCC
TCCATGTTGGAATCAAGAAGTTAGTGTGCAGTGACGAGTGTGGACTCAAGTGTTGCAACA
CGTACGTACGCATGCACCTAAGTTGCAAGCTACGCAAAGCTAACTACTGTACGTACTACA
GTACAAGCTGCAGGTTGTAAAGTGGTCTGTATATCGTGTGATCGTAATTGCCGGTTGGTA
AAGCTAGCACAGTGACATTTCTTCAATTAATGACAGTTTTGTT



Protein Sequence (361 aa)

>BART1_0-u16377.003 361 150831_barley_pseudomolecules
MLVTYPQMMEWLEGLGVEMERSDMSFSVSTQSKGGGGGCEWGNGNGISSLLAQKTNILKP
SFWHMVCEILKFKNNALTYLEDHERNPDLDRNETLGQFIQSHGYSLSFQEAYLIPVCTGT
WSCSSQDVLSLSAFLVLSFCRNHGLLQLFRHSQLPTVKPSSQSYVNKVKGELESIGCRIK
TSCRVKSVSSLDGAAGYRVLENDGSVETYDSVIFGVHASNALKLLGAEASHHERRILGAC
QYVQRDIYLHCDQNLMPRKSAAWSAWNFLGTTSRGFSITYWLNQIQKFESGRPFLVTLNP
PCVPDHVLLKWNTSLPVPSVAAAKAYLQLDQIQGKRGIWFCGAYQGHGFHEDGLKIGRRR
R